genome.fa.s1547.2.7.7.80.10.50.1000.7.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  7  of  51  ( 6083 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1289125--1289246	45	2.7	43	77	12	120	75	1	18	4	1.05
1289125--1289249	7	17.0	7	70	16	67	76	1	18	4	1.03
1290586--1290630	21	2.1	21	87	0	63	31	28	24	15	1.96
1291070--1291106	18	2.0	20	84	10	51	59	0	5	35	1.20
1291070--1291119	22	2.4	20	80	9	55	54	0	10	36	1.34
1292140--1292461	103	3.1	103	95	0	572	26	13	23	36	1.91
1294840--1294871	2	15.5	2	93	6	55	50	0	3	46	1.17
1294884--1294913	16	1.9	15	93	6	51	53	3	23	20	1.60
1295448--1295492	21	2.1	21	87	0	63	31	28	24	15	1.96
1297083--1297383	98	3.0	99	92	4	514	26	13	23	36	1.92
1297079--1297394	103	3.1	103	93	4	552	25	13	23	37	1.92
1297401--1297478	23	3.3	23	74	1	66	21	17	25	34	1.96
1300631--1300675	21	2.1	21	91	0	72	33	28	22	15	1.95
1302178--1302492	103	3.1	103	93	2	534	26	13	23	36	1.92
1302509--1302567	23	2.6	23	86	0	73	18	25	32	23	1.97
1302509--1302575	23	2.9	23	84	0	71	19	22	29	28	1.98
1306075--1307049	134	7.3	134	84	3	1146	32	22	16	29	1.96
1306075--1307039	266	3.6	264	85	4	1195	32	22	16	29	1.96
1306071--1307062	400	2.5	399	84	3	1273	31	22	16	29	1.96
1310181--1310220	16	2.5	16	100	0	80	35	25	20	20	1.96
1310213--1310323	35	3.2	35	80	2	134	40	22	27	9	1.84
1310212--1310272	19	3.4	19	71	13	56	42	22	27	6	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1310311--1310362	16	3.3	15	78	5	50	40	19	25	15	1.90
1312675--1312707	16	2.1	16	94	0	57	78	0	9	12	0.95
1318031--1318058	2	14.0	2	100	0	56	0	50	0	50	1.00
1331012--1331289	117	2.5	107	87	6	378	35	15	23	25	1.94
1331192--1331361	72	2.3	74	89	6	254	32	15	22	29	1.94
1331081--1331478	189	2.1	189	94	0	697	34	15	22	28	1.94
1331270--1331628	117	3.2	111	83	8	451	37	15	21	26	1.93
1331566--1331630	20	3.3	20	67	18	55	44	12	21	21	1.85
1331553--1331722	91	1.9	91	91	4	281	42	12	19	24	1.86
1331891--1331927	3	12.0	3	94	5	65	64	0	0	35	0.94
1333053--1333088	16	2.3	15	90	4	54	19	13	2	63	1.41
1342351--1342390	17	2.4	17	83	8	55	12	35	27	25	1.92
1343146--1343223	27	2.9	27	96	0	147	32	15	19	33	1.93
1344381--1344413	15	2.2	15	89	10	50	48	12	18	21	1.80
1345149--1345296	29	5.1	28	82	4	161	40	22	4	31	1.75
1345170--1345302	57	2.3	58	84	6	164	38	25	5	30	1.78
1352203--1352331	29	4.5	28	87	4	150	38	24	5	31	1.78
1352183--1352331	58	2.6	58	79	4	158	40	23	4	30	1.75
1353920--1354007	37	2.4	37	84	7	108	60	4	3	31	1.34
1354109--1354135	2	13.5	2	100	0	54	48	0	0	51	1.00
1354246--1354297	3	17.0	3	92	4	86	32	0	1	65	1.04
1366940--1367325	193	2.0	193	100	0	772	26	17	27	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1367880--1367913	17	2.1	16	88	5	50	76	0	8	14	1.01
1372503--1372594	48	2.0	48	86	4	134	68	0	18	13	1.21
1386785--1386809	13	1.9	13	100	0	50	68	0	16	16	1.22
1388335--1388379	18	2.5	18	100	0	90	35	11	20	33	1.88
1390157--1390281	47	2.8	45	84	11	159	30	21	8	40	1.82
1390157--1390295	47	3.2	42	81	12	133	30	22	7	39	1.82
1397411--1397453	20	2.2	20	91	0	68	32	20	13	32	1.92
1399731--1399820	32	2.9	31	86	4	128	32	22	18	26	1.97
1400297--1400328	2	16.0	2	93	0	55	46	0	0	53	1.00
1400781--1400811	11	2.8	11	100	0	62	19	25	9	45	1.81
1403568--1403639	32	2.3	31	90	4	110	33	20	20	25	1.97
1414713--1414825	60	1.9	59	83	1	145	36	9	16	37	1.82
1424513--1424545	16	2.1	16	94	0	57	30	45	6	18	1.73
1426655--1426839	31	6.0	31	97	1	336	19	19	22	38	1.93
1430837--1431021	31	6.0	31	96	1	327	20	19	22	38	1.94
1437637--1437669	15	2.2	15	94	0	57	51	3	0	45	1.16
1438527--1438575	25	1.9	25	91	4	80	16	55	16	12	1.70
1438527--1438575	13	3.8	13	91	5	82	16	55	16	12	1.70
1438699--1438733	12	2.9	12	95	0	61	28	51	11	8	1.67
1440574--1440606	18	1.9	18	88	11	52	36	6	0	57	1.23
1441697--1441883	60	3.1	60	83	3	218	37	4	24	33	1.77
1442535--1442795	132	2.0	131	91	3	427	40	14	9	35	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1444837--1444873	2	18.5	2	100	0	74	51	0	0	48	1.00
1445052--1445170	24	5.0	24	86	6	152	39	20	17	22	1.92
1445088--1445188	48	2.1	48	84	0	130	42	19	14	22	1.88
1446366--1446400	18	1.9	18	88	0	52	28	17	0	54	1.43
1447725--1447761	13	2.8	13	91	0	65	13	21	48	16	1.80
1449846--1449897	24	2.2	24	82	0	59	50	17	11	21	1.77
1449866--1449984	24	5.0	24	87	6	152	40	19	16	23	1.91
1449869--1450002	48	2.8	47	80	6	153	41	18	15	23	1.89
1451171--1451205	18	1.9	18	88	0	52	28	17	0	54	1.43
1452438--1452478	18	2.3	18	95	0	73	12	21	48	17	1.79
1452434--1452497	31	2.1	31	84	0	83	17	18	43	20	1.88
1453952--1453980	15	1.9	15	100	0	58	68	6	0	24	1.13
1461081--1461125	6	7.5	6	100	0	90	84	0	0	15	0.62
1463111--1463353	123	2.0	124	90	2	382	24	14	23	38	1.92
1466359--1467450	550	2.0	550	91	1	1794	27	20	19	33	1.96
1468978--1469011	15	2.3	15	94	0	59	32	32	20	14	1.93
1469096--1469187	29	3.2	29	95	1	168	17	20	15	46	1.84
1469190--1469214	12	2.1	12	100	0	50	40	24	0	36	1.55
1469096--1469217	58	2.1	57	80	7	131	22	21	12	44	1.85
1469568--1469724	64	2.5	64	76	8	167	28	17	19	34	1.95
1470173--1470197	11	2.3	11	100	0	50	56	32	0	12	1.36
1473393--1473484	29	3.2	29	98	1	177	17	20	16	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1473884--1474034	45	3.4	45	88	3	216	30	13	19	37	1.90
1474935--1475249	157	2.0	157	100	0	630	27	19	22	31	1.97
1481976--1482002	6	4.5	6	100	0	54	85	0	0	14	0.61
1483391--1483429	12	3.2	12	82	7	51	51	5	5	38	1.46
1485595--1485666	20	3.5	20	81	7	90	27	13	30	27	1.94
1485578--1485666	42	2.1	42	89	0	133	30	14	26	28	1.95
1485578--1485649	22	3.4	22	78	7	76	33	15	23	27	1.95
1485991--1487233	54	23.2	54	85	3	1501	32	16	18	33	1.93
1486887--1486976	45	2.0	45	82	8	112	32	15	18	33	1.93
1487029--1487111	26	3.1	26	63	24	64	31	16	15	36	1.91
1493355--1493413	22	2.7	22	76	10	66	40	11	16	30	1.85
1493751--1494035	54	5.3	54	86	0	338	33	18	15	32	1.93
1503991--1504639	236	2.8	230	84	5	795	34	14	17	32	1.91
1505132--1505688	134	4.2	134	85	3	694	30	18	17	33	1.94
1505654--1505731	41	1.9	41	91	0	129	28	20	17	33	1.96
1505520--1505853	175	1.9	174	84	4	440	30	21	16	31	1.95
1506053--1506094	22	1.9	22	85	0	57	33	2	4	59	1.31
1508680--1508731	27	2.0	27	84	3	70	42	5	1	50	1.37
1510545--1510680	60	2.3	60	78	5	150	33	15	13	37	1.87
1512336--1512363	2	14.0	2	100	0	56	50	0	0	50	1.00
1513273--1513314	21	2.0	21	85	0	57	52	7	9	30	1.61
1513732--1513775	17	2.6	17	96	0	79	36	20	13	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1514506--1514550	2	22.5	2	100	0	90	51	0	0	48	1.00
1525333--1525431	29	3.4	29	83	5	121	55	10	5	29	1.54
1525803--1525866	32	2.0	32	90	3	103	26	17	10	45	1.81
1525999--1526051	21	2.5	22	87	9	83	45	20	1	32	1.62
1525998--1526066	21	3.3	21	81	0	66	44	21	1	31	1.61
1530532--1530563	10	3.2	10	100	0	64	46	18	0	34	1.49
1535805--1535938	41	3.3	40	74	11	121	28	17	18	35	1.93
1536664--1536934	82	3.3	83	77	6	257	36	16	14	32	1.89
1536700--1536969	82	3.3	83	80	7	214	35	15	14	34	1.88
1537377--1537453	30	2.5	30	81	10	93	74	3	5	16	1.16

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51